SMTL ID : 6vs7.2 (1 other biounit)

Sialic acid binding region of Streptococcus Sanguinis SK1 adhesin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.2, T.4, D.30, D.31, D.104 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.2, A:D.2, A:T.4, A:D.30, A:D.31 CA.2: 3 residues within 4Å: Chain A: T.128, Y.131, D.190 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.128, A:Y.131, A:D.190, H2O.11, H2O.14 CA.3: 5 residues within 4Å: Chain A: D.201, V.203, D.230, N.231, D.305 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.201, A:D.201, A:V.203, A:D.230, A:D.230 CA.4: 3 residues within 4Å: Chain A: T.324, Y.327, D.393 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Y.327, A:D.393, A:D.393, H2O.8, H2O.11

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.6: 2 residues within 4Å: Chain A: T.71, N.74 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.71, A:T.71 Water bridges: A:T.71, A:N.74

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 3 residues within 4Å: Chain A: P.286, K.287, S.288 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.287, A:S.288, A:S.288

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 2 residues within 4Å: Chain A: R.390, R.392 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.390, A:R.390, A:R.392 EDO.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EDO.10: 2 residues within 4Å: Chain A: Q.343, N.374 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.343, A:N.374 Water bridges: A:Q.342 EDO.11: 2 residues within 4Å: Chain A: R.212, H.227 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.225 EDO.12: 3 residues within 4Å: Chain A: Y.96, T.97, K.98 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.97, A:T.97, A:K.98, A:K.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stubbs, H.E. et al., Tandem sialoglycan-binding modules in a Streptococcus sanguinis serine-rich repeat adhesin create target dependent avidity effects. J.Biol.Chem. (2020)

Release Date

2020-08-26

Peptides

Adhesin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

Adhesin

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